Sample 3300000670

Overview

Basic Information
IMG/M Taxon OID	3300000670 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0075432 \| Gp0054814 \| Ga0002001
Sample Name	Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 78
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	4595509
Sequencing Scaffolds	8
Novel Protein Genes	9
Associated Families	7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	1
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Ktedonobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Tropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico
Type	Environmental
Taxonomy	Environmental → Terrestrial → Soil → Loam → Forest Soil → Tropical Forest Soil → Tropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	forest biome → tropical forest → forest soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Soil (non-saline)

Location Information
Location	Luquillo Experimental Forest Soil, Puerto Rico
Coordinates	Lat. (^o)	18.0	Long. (^o)	-65.0	Alt. (m)	N/A	Depth (m)	.1
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F000242	Metagenome / Metatranscriptome	1480	Y
F000466	Metagenome / Metatranscriptome	1105	Y
F012657	Metagenome	278	Y
F031584	Metagenome / Metatranscriptome	182	Y
F048473	Metagenome	148	N
F091102	Metagenome	107	N
F091903	Metagenome	107	N

Family

Category

Number of Sequences

3D Structure?

F000242

Metagenome / Metatranscriptome

1480

F000466

Metagenome / Metatranscriptome

1105

F012657

Metagenome

278

F031584

Metagenome / Metatranscriptome

182

F048473

Metagenome

148

F091102

Metagenome

107

F091903

Metagenome

107

Scaffold	Taxonomy	Length	IMG/M Link
JGI12454J11922_100101	All Organisms → cellular organisms → Bacteria	1433	Open in IMG/M
JGI12454J11922_100620	Not Available	704	Open in IMG/M
JGI12454J11922_100655	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	693	Open in IMG/M
JGI12454J11922_100678	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	685	Open in IMG/M
JGI12454J11922_100914	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Ktedonobacteria	614	Open in IMG/M
JGI12454J11922_101000	Not Available	591	Open in IMG/M
JGI12454J11922_101059	Not Available	580	Open in IMG/M
JGI12454J11922_101232	Not Available	549	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

JGI12454J11922_100101

All Organisms → cellular organisms → Bacteria

1433

Open in IMG/M

JGI12454J11922_100620

Not Available

704

Open in IMG/M

JGI12454J11922_100655

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium

693

Open in IMG/M

JGI12454J11922_100678

All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium

685

Open in IMG/M

JGI12454J11922_100914

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Ktedonobacteria

614

Open in IMG/M

JGI12454J11922_101000

Not Available

591

Open in IMG/M

JGI12454J11922_101059

Not Available

580

Open in IMG/M

JGI12454J11922_101232

Not Available

549

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
JGI12454J11922_100101	JGI12454J11922_1001011	F031584	QRDCNSSTALEFGPLMSALGHVWTAPWQELSDASAALVGCGHVSGLLMRPM*
JGI12454J11922_100620	JGI12454J11922_1006202	F048473	LGNRITAALIFLNAVGFLGCLILIATVSHQVPDVAIWIIRAVKYSLQMFIFGALLPVIVWSIAASEINRSSFRVRLVEDWARYFLLFASGALFFIAASRLPNSIISSSEHESELTTRHEGGFWICPFLGRCGPPGTPGLGTWEK*
JGI12454J11922_100655	JGI12454J11922_1006552	F031584	MSALGHVWTAPWQELSDVAAALVGCGHVSGLLMRRMCRWP*
JGI12454J11922_100678	JGI12454J11922_1006781	F000466	LTYMTTPEAWQRWKKLPSQGVVKRDWVPTGRIDFATRFYGNLEDSDQPSEFKLIVEERRIVESITGNENLEIQWRLATLNEAKVVVAQYHKYLSENSLIKSVFDEPASLPPPKRIQKIQESTAA*
JGI12454J11922_100914	JGI12454J11922_1009142	F091903	MGHRDKKRHPGWLQPRWERQKRDTAARVEAAVRALQKDHAEVTYASICKRVSILFGLSISPNTIKRNELSYRIYMASRRPPRRKQLRESVLMQLINSASGPEKRSMWSKTARLRRESKDALI
JGI12454J11922_101000	JGI12454J11922_1010001	F012657	HNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEF
JGI12454J11922_101059	JGI12454J11922_1010591	F012657	DDPQVAPETFRLPEAFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG*
JGI12454J11922_101179	JGI12454J11922_1011791	F000242	MCWEMDYRFFAEQKKAQEKQEQRNEVISKLLNEANKPGEKTNVEETPVKESVPAK*
JGI12454J11922_101232	JGI12454J11922_1012321	F091102	ADSDFNSVVNYTVRHLGENRMKQWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVY

Scaffold ID

Protein ID

Family

Sequence

JGI12454J11922_100101

JGI12454J11922_1001011

F031584

QRDCNSSTALEFGPLMSALGHVWTAPWQELSDASAALVGCGHVSGLLMRPM*

JGI12454J11922_100620

JGI12454J11922_1006202

F048473

LGNRITAALIFLNAVGFLGCLILIATVSHQVPDVAIWIIRAVKYSLQMFIFGALLPVIVWSIAASEINRSSFRVRLVEDWARYFLLFASGALFFIAASRLPNSIISSSEHESELTTRHEGGFWICPFLGRCGPPGTPGLGTWEK*

JGI12454J11922_100655

JGI12454J11922_1006552

F031584

MSALGHVWTAPWQELSDVAAALVGCGHVSGLLMRRMCRWP*

JGI12454J11922_100678

JGI12454J11922_1006781

F000466

LTYMTTPEAWQRWKKLPSQGVVKRDWVPTGRIDFATRFYGNLEDSDQPSEFKLIVEERRIVESITGNENLEIQWRLATLNEAKVVVAQYHKYLSENSLIKSVFDEPASLPPPKRIQKIQESTAA*

JGI12454J11922_100914

JGI12454J11922_1009142

F091903

MGHRDKKRHPGWLQPRWERQKRDTAARVEAAVRALQKDHAEVTYASICKRVSILFGLSISPNTIKRNELSYRIYMASRRPPRRKQLRESVLMQLINSASGPEKRSMWSKTARLRRESKDALI

JGI12454J11922_101000

JGI12454J11922_1010001

F012657

HNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEF

JGI12454J11922_101059

JGI12454J11922_1010591

F012657

DDPQVAPETFRLPEAFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG*

JGI12454J11922_101179

JGI12454J11922_1011791

F000242

MCWEMDYRFFAEQKKAQEKQEQRNEVISKLLNEANKPGEKTNVEETPVKESVPAK*

JGI12454J11922_101232

JGI12454J11922_1012321

F091102

ADSDFNSVVNYTVRHLGENRMKQWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVY

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300000670: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 78

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences